Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9585	0.722
27DAP/17DAP	1.02291	0.927
39DAP/27DAP	0.85608	0.41
41DAP/39DAP	1.31891	0.334
42DAP/41DAP	1.05383	0.994
43DAP/42DAP	1.04827	1
47DAP/43DAP	0.96011	0.847
52DAP/47DAP	1.32416	0.438
57DAP/52DAP	1.03191	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93686	0.317
17DAP/reference	1.017	0.653
27DAP/reference	0.94566	0.359
39DAP/reference	1.06854	0.453
41DAP/reference	0.92197	0.341
42DAP/reference	0.89535	0.017
43DAP/reference	0.89549	0.331
47DAP/reference	0.92901	0.019
52DAP/reference	0.9389	0.31
57DAP/reference	0.97106	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02347	0.749
27DAP/17DAP	0.9792	0.782
39DAP/27DAP	1.03859	0.56
41DAP/39DAP	1.07401	0.565
42DAP/41DAP	0.98525	0.819
43DAP/42DAP	0.96603	0.293
47DAP/43DAP	1.01013	0.926
52DAP/47DAP	0.98946	0.93
57DAP/52DAP	1.02479	0.885
57DAP/7DAP	1.03622	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81425	0.078
17DAP/reference	0.81783	0.018
27DAP/reference	0.84678	0.012
39DAP/reference	0.87325	0.013
41DAP/reference	0.85136	0.014
42DAP/reference	0.65814	0.015
43DAP/reference	0.79231	0.022
47DAP/reference	0.76303	0.057
52DAP/reference	0.80755	0.018
57DAP/reference	0.79224	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89476	0.157
17DAP/reference	0.92716	0.077
27DAP/reference	0.80902	0.071
39DAP/reference	0.87468	0.119
41DAP/reference	0.86448	0.13
42DAP/reference	0.9528	0.355
43DAP/reference	0.93973	0.298
47DAP/reference	1.03279	0.731
52DAP/reference	0.83892	0.009
57DAP/reference	0.95421	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82826	0.065
17DAP/reference	0.93489	0.374
27DAP/reference	0.82546	0.05
39DAP/reference	0.77689	0.013
41DAP/reference	0.81565	0.027
42DAP/reference	0.83301	0.019
43DAP/reference	0.80785	0.052
47DAP/reference	0.93165	0.259
52DAP/reference	0.8498	0.327
57DAP/reference	0.71622	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00469	0.966
26DAP/20DAP	0.97348	0.512
34DAP/26DAP	1.0456	0.819
51DAP/34DAP	0.98104	0.807
52DAP/51DAP	0.99745	1
53DAP/52DAP	1.08742	0.502
55DAP/53DAP	1.04502	0.629
57DAP/55DAP	0.9482	0.757
62DAP/57DAP	1.04158	0.935
68DAP/62DAP	1.1446	0.672
68DAP/14DAP	1.13509	0.915

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95084	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.31757	0.08
Mature Green Tomato/Ripe Tomato	0.82487	0.119
Immature Eggplant/Mature Eggplant	2.27116	0.052
Ripe Pepper/Ripe Tomato	10.5266	1
Mature Eggplant/Ripe Tomato	5.39229

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9286	0.907
1-1-2/M82	1.05077	1
12-2/M82	1.02167	1
12-4/M82	0.96593	1
1-3/M82	0.88903	0.441
2-1-1/M82	0.95262
2-1/M82	1.28263	1
2-6/M82	0.97054	1
3-2/M82	0.99576	1
4-1-1/M82	1.0268	1
4-1/M82	0.75517	0.867
4-3-2/M82	1.05194	1
4-3/M82	1.09862	1
5-3/M82	1.02458	0.572
6-2/M82	1.05134	1
6-3/M82	1.01348	1
7-1/M82	0.95722	1
7-2/M82	0.97034	0.57
9-3-2/M82	0.99455	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1644	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11436	1
IL12-4/WTpooled	1.15684	0.557
IL1-4/WTpooled	0.99604
WT/WTpooled	0.96163	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.73563	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99547	1
DC3000/delta hrp 6h	1.16784	1
DC3000/delta hrp 12h	0.85948	1
DC3000/delta hrp 24h	1.02426	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25464	0.043
DC3000 delta B/DC3000 delta AB	1.23836	0.137

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.49635	0.228
Exp 36h	1.95091	0.371
Exp 60h	2.12557	0.283

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.97192	1
Var 0h	1.08118	0.374
Var 12h I row2-row1	0.98547	1
Var 12h NI row2-row1	1.02775	1
Var 36h I row2-row1	0.85326	0.805
Var 36h NI row2-row1	1.07449	1
Var 60h I row2-row1	1.00993	1
Var 60h NI row2-row1	1.11523	0.904
Time course 0hI-0hNI	1.07407	0.852
Time course 12hI-12hNI	1.12363	0.313
Time course 36hI-36hNI	1.38079	0.005
Time course 60hI-60hNI	2.41906	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.72764	0.863
transgenic ySAMdc/azygous control (breaker)	2.16066	1
transgenic ySAMdc/azygous control (red)	1.58539	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98236	0.146

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19254	0.239

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.76903	0.14
Manapal/WT (break)	0.98623	1
Manapal/WT (red)	0.37024	0.199